Freely available online differential-diagnosis generating tools are changing clinical medicine and biomedical research. With webddx, useRs can generate differential diagnosis lists given a set of symptoms. The web tools would likely be directly used in clinical practice, but programmatic interaction and data manipulation can sharply increase efficiency and reproducibility of research in clinical informatics. Relevant visualizations can also be created with webddx.
webddx is an R package allowing for programmatic interaction with web-based differential diagnosis-generating tools. It provides an API client for popular tools (e.g. OMIM) with complementary functionality (e.g. visualization) to serve as an effective tool in clinical informatics research.
To install webddx, run the following R code:
# install from CRANinstall.packages("webddx")# install development version from GitHubdevtools::install_github("rrrlw/webddx")# install development version with vignettes/tutorialsdevtools::install_github("rrrlw/webddx", build_vignettes = TRUE)
# load webddxlibrary("webddx")# query FindZebra for rare diseases involving muscle pain and fatiguequery_fz(query = c("muscle pain", "fatigue"))
See the documentation of
query_fz for information on customizing FindZebra queries using additional parameters.
Currently, webddx implements an API client for FindZebra. Development is focused on adding an API client for OMIM.
To contribute to webddx, you can create issues for any bugs/suggestions on the issues page. You can also fork the webddx repository and create pull requests to implement features.